{"id":31805814,"url":"https://github.com/theislab/scanpy-demo-czbiohub","last_synced_at":"2026-02-18T15:01:05.220Z","repository":{"id":78601076,"uuid":"218822560","full_name":"theislab/scanpy-demo-czbiohub","owner":"theislab","description":"single-cell scanpy teaching","archived":false,"fork":false,"pushed_at":"2019-11-05T03:07:07.000Z","size":10293,"stargazers_count":5,"open_issues_count":0,"forks_count":5,"subscribers_count":3,"default_branch":"master","last_synced_at":"2026-01-15T00:52:42.715Z","etag":null,"topics":["scanpy","single-cell","teaching-materials"],"latest_commit_sha":null,"homepage":"","language":"HTML","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/theislab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null}},"created_at":"2019-10-31T17:31:13.000Z","updated_at":"2022-03-09T17:07:01.000Z","dependencies_parsed_at":"2023-03-12T04:45:55.016Z","dependency_job_id":null,"html_url":"https://github.com/theislab/scanpy-demo-czbiohub","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/theislab/scanpy-demo-czbiohub","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/theislab%2Fscanpy-demo-czbiohub","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/theislab%2Fscanpy-demo-czbiohub/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/theislab%2Fscanpy-demo-czbiohub/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/theislab%2Fscanpy-demo-czbiohub/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/theislab","download_url":"https://codeload.github.com/theislab/scanpy-demo-czbiohub/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/theislab%2Fscanpy-demo-czbiohub/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":29582789,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-02-18T13:56:48.962Z","status":"ssl_error","status_checked_at":"2026-02-18T13:54:34.145Z","response_time":162,"last_error":"SSL_connect returned=1 errno=0 peeraddr=140.82.121.5:443 state=error: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["scanpy","single-cell","teaching-materials"],"created_at":"2025-10-11T02:58:56.417Z","updated_at":"2026-02-18T15:01:05.207Z","avatar_url":"https://github.com/theislab.png","language":"HTML","funding_links":[],"categories":[],"sub_categories":[],"readme":"# scanpy-demo-czbiohub\n\nThis is the github repositiory of the 2-day workshop on single-cell RNA-seq data analysis taken place at the CZ Biohub in San Francisco on 10/31 - 11/1/19.\n\n## Data for the general introductory tutorial on 4k PBMCs from 10X genomics:\n\nDemo dataset comes originally from 10X Genomics, available in various formats here: https://support.10xgenomics.com/single-cell-gene-expression/datasets/1.2.0/pbmc4k\nThe demo dataset of the tutorial is made available via Gigamove (link works until 11/11/19): https://gigamove.rz.rwth-aachen.de/d/id/xDALfiSFawCCcz\n\n## Introduction to differential tests\n\nTutorials are found in https://github.com/theislab/diffxpy_tutorials.\n\n## Introduction to velocities\n\nHere, we work on the dynamical velocity model of Bergen et al. on bioRxiv (https://www.biorxiv.org/content/10.1101/820936v1)\nPlease follow the link to the package: https://github.com/theislab/scvelo\nWe will use the following demo notebooks: https://scvelo-notebooks.readthedocs.io/DentateGyrus.html and https://scvelo-notebooks.readthedocs.io/Pancreas.html or as jupyter notebooks https://github.com/theislab/scvelo_notebooks/blob/master/DentateGyrus.ipynb and https://github.com/theislab/scvelo_notebooks/blob/master/Pancreas.ipynb.\n\n## Google doc for questions\nhttps://docs.google.com/document/d/1t4qFcVByExVxEtN7FUHtuDqObVzrSCfs92mQRgJXBEM/edit?usp=sharing\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ftheislab%2Fscanpy-demo-czbiohub","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Ftheislab%2Fscanpy-demo-czbiohub","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ftheislab%2Fscanpy-demo-czbiohub/lists"}